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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/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' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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 45 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ), 'gf_id' => 'HOM05D001009', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001009' ), 'data_identifier' => 'HOM05D001009', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001009', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '599', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A03p00490' => 'bna', 'A03p02510' => 'bna', 'A03p14910' => 'bna', 'A03p14920' => 'bna', 'A03p15230' => 'bna', 'A03p15240' => 'bna', 'A03p61150' => 'bna', 'A04p04370' => 'bna', 'A05p06610' => 'bna', 'A06p11920' => 'bna', 'A07p44970' => 'bna', 'A10p30360' => 'bna', 'Aa31LG10G10610' => 'aar', 'Aa31LG11G7040' => 'aar', 'Aa31LG1G22650' => 'aar', 'Aa31LG2G18150' => 'aar', 'Aa31LG4G990' => 'aar', 'Aa31LG5G19830' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3228' => 'aag', 'Actinidia02375' => 'ach', 'Actinidia13204' => 'ach', 'Actinidia13891' => 'ach', 'Actinidia18239' => 'ach', 'Actinidia22308' => 'ach', 'Actinidia25451' => 'ach', 'Actinidia25452' => 'ach', 'Ah.10g037100' => 'amhyb', 'Ah.10g037110' => 'amhyb', 'AL1G28030' => 'aly', 'AL2G40710' => 'aly', 'AL4G37280' => 'aly', 'AL4G37290' => 'aly', 'AL4G37300' => 'aly', 'AL4G37310' => 'aly', 'AL4G37330' => 'aly', 'AL5G36810' => 'aly', 'AL6G11270' => 'aly', 'AL6G15950' => 'aly', 'AL772U10020' => 'aly', 'AL7G19960' => 'aly', 'Aqoxy1G00831' => 'aox', 'Aqoxy2G02348' => 'aox', 'Aqoxy5G01281' => 'aox', 'Aqoxy6G03034' => 'aox', 'arahy.Tifrunner.gnm1.ann1.2WFT1V' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4F3MJE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6U61K3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B3W4AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E59ZMA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFR9P9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H18GF1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1AIJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.W9PXM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Y2MR3P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YXBR92' => 'arhy', 'AT1G15870' => 'ath', 'AT1G80720' => 'ath', 'AT2G39790' => 'ath', 'AT2G39795' => 'ath', 'AT2G46190' => 'ath', 'AT3G55605' => 'ath', 'AT4G31930' => 'ath', 'AT5G02050' => 'ath', 'AT5G05990' => 'ath', 'ATR0559G287' => 'atr', 'ATR0693G259' => 'atr', 'Atru.chr10.2282' => 'acertr', 'Atru.chr10.2283' => 'acertr', 'Atru.chr12.316' => 'acertr', 'Atru.chr12.341' => 'acertr', 'Atru.chr2.339' => 'acertr', 'Atru.chr3.859' => 'acertr', 'Atru.chr7.2516' => 'acertr', 'Atru.chr8.2060' => 'acertr', 'Atru.chr8.2062' => 'acertr', 'AUR62012145' => 'cqu', 'AUR62012459' => 'cqu', 'AUR62026986' => 'cqu', 'AUR62030825' => 'cqu', 'AUR62031583' => 'cqu', 'AUR62040690' => 'cqu', 'BcaB01g04256' => 'bca', 'BcaB01g04257' => 'bca', 'BcaB01g04261' => 'bca', 'BcaB01g05748' => 'bca', 'BcaB01g05969' => 'bca', 'BcaB01g06073' => 'bca', 'BcaB01g06209' => 'bca', 'BcaB02g08407' => 'bca', 'BcaB02g09088' => 'bca', 'BcaB03g16042' => 'bca', 'BcaC01g06236' => 'bca', 'BcaC01g06238' => 'bca', 'BcaC01g06270' => 'bca', 'BcaC02g09772' => 'bca', 'BcaC02g12112' => 'bca', 'BcaC02g12934' => 'bca', 'BcaC06g32309' => 'bca', 'BcaC06g32313' => 'bca', 'BcaC08g47550' => 'bca', 'BcaC09g51985' => 'bca', 'BcaNung01349' => 'bca', 'BcaNung01353' => 'bca', 'BcaNung04456' => 'bca', 'BcaNung04457' => 'bca', 'BcaNung05705' => 'bca', 'BcaNung06230' => 'bca', 'BolC1t00692H' => 'bol', 'BolC3t12640H' => 'bol', 'BolC3t12840H' => 'bol', 'BolC3t13328H' => 'bol', 'BolC3t14153H' => 'bol', 'BolC3t14154H' => 'bol', 'BolC3t14186H' => 'bol', 'BolC3t14189H' => 'bol', 'BolC4t22388H' => 'bol', 'BolC4t25121H' => 'bol', 'BolC5t30141H' => 'bol', 'BolC6t40393H' => 'bol', 'BolC7t46349H' => 'bol', 'BolC9t59839H' => 'bol', 'BraA03t09441Z' => 'bra', 'BraA03t09612Z' => 'bra', 'BraA03t10787Z' => 'bra', 'BraA03t10788Z' => 'bra', 'BraA03t10816Z' => 'bra', 'BraA03t10817Z' => 'bra', 'BraA03t15153Z' => 'bra', 'BraA03t15159Z' => 'bra', 'BraA04t16147Z' => 'bra', 'BraA05t19628Z' => 'bra', 'BraA06t24362Z' => 'bra', 'BraA07t32002Z' => 'bra', 'BraA10t45075Z' => 'bra', 'C01p06960' => 'bna', 'C03p00770' => 'bna', 'C03p02850' => 'bna', 'C03p17400' => 'bna', 'C03p17410' => 'bna', 'C03p17790' => 'bna', 'C03p17820' => 'bna', 'C04p07720' => 'bna', 'C04p36760' => 'bna', 'C05p14100' => 'bna', 'C06p53750' => 'bna', 'C07p59010' => 'bna', 'C09p70800' => 'bna', 'CAN.G115.3' => 'can', 'CAN.G199.67' => 'can', 'CAN.G407.50' => 'can', 'CAN.G554.13' => 'can', 'CAN.G724.19' => 'can', 'CAN.G774.39' => 'can', 'CAN.G774.44' => 'can', 'CANSAT25G2270' => 'cansat', 'CANSAT35G1073' => 'cansat', 'CANSAT56G0269' => 'cansat', 'CANSAT56G1474' => 'cansat', 'CARHR016390' => 'chi', 'CARHR073770' => 'chi', 'CARHR134670' => 'chi', 'CARHR165660' => 'chi', 'CARHR207220' => 'chi', 'CARHR211300' => 'chi', 'CARHR239850' => 'chi', 'Carub.0001s1567' => 'cru', 'Carub.0002s2683' => 'cru', 'Carub.0004s2188' => 'cru', 'Carub.0004s2189' => 'cru', 'Carub.0004s2845' => 'cru', 'Carub.0005s2235' => 'cru', 'Carub.0006s0090' => 'cru', 'Carub.0006s0489' => 'cru', 'Carub.0007s0861' => 'cru', 'Ca_05446_v3' => 'car', 'Ca_05905_v3' => 'car', 'Ca_13052_v3' => 'car', 'Ca_20553_v3' => 'car', 'CBR_g21837' => 'cbr', 'CBR_g45283' => 'cbr', 'CBR_g51122' => 'cbr', 'CBR_g58208' => 'cbr', 'Cc02_g07350' => 'ccan', 'Cc04_g04940' => 'ccan', 'Cc08_g00080' => 'ccan', 'CDE02G3031' => 'cde', 'CDE05G1810' => 'cde', 'CDE06G2341' => 'cde', 'CDE07G0036' => 'cde', 'CDE09G1253' => 'cde', 'Cfa001417' => 'cfa', 'Cfa013083' => 'cfa', 'Cfa017324' => 'cfa', 'Cfa017325' => 'cfa', 'Cfa022151' => 'cfa', 'Ciclev10009325m.g' => 'ccl', 'Ciclev10012447m.g' => 'ccl', 'Ciclev10026378m.g' => 'ccl', 'Ciclev10032528m.g' => 'ccl', 'CiPaw.01G253200' => 'cil', 'CiPaw.01G292100' => 'cil', 'CiPaw.02G161100' => 'cil', 'CiPaw.07G228200' => 'cil', 'CiPaw.09G199200' => 'cil', 'ClCG05G016500' => 'cla', 'ClCG09G003260' => 'cla', 'ClCG10G021440' => 'cla', 'ClCG11G006610' => 'cla', 'COL.COLO4_00068' => 'col', 'COL.COLO4_14728' => 'col', 'COL.COLO4_18931' => 'col', 'COL.COLO4_25519' => 'col', 'COL.COLO4_25520' => 'col', 'COL.COLO4_26670' => 'col', 'Cpa.g.sc10.106' => 'cpa', 'Cpa.g.sc127.7' => 'cpa', 'Cpa.g.sc33.170' => 'cpa', 'Cpa.g.sc454.2' => 'cpa', 'Cre04.g225600' => 'cre', 'Cre10.g447100' => 'cre', 'CsaV3_4G036750' => 'csa', 'CsaV3_6G001390' => 'csa', 'CsaV3_7G031950' => 'csa', 'CSS0002250' => 'camsi', 'CSS0003353' => 'camsi', 'CSS0039760' => 'camsi', 'CSS0049537' => 'camsi', 'DCAR_011512' => 'dca', 'DCAR_011513' => 'dca', 'DCAR_011745' => 'dca', 'DCAR_012843' => 'dca', 'DCAR_023549' => 'dca', 'DCAR_025580' => 'dca', 'DCAR_027590' => 'dca', 'Dinv09912' => 'din', 'Dinv16476' => 'din', 'Dinv23301' => 'din', 'Dinv34469' => 'din', 'Dinv35558' => 'din', 'Duzib106G0916' => 'dzi', 'Duzib114G0353' => 'dzi', 'Duzib168G1020' => 'dzi', 'Duzib192G0078' => 'dzi', 'ECA232G3500' => 'eca', 'ECA246G5075' => 'eca', 'EL10Ac2g04138' => 'bvu', 'EL10Ac2g04692' => 'bvu', 'EL10Ac9g22225' => 'bvu', 'Eucgr.C01668' => 'egr', 'Eucgr.E02483' => 'egr', 'Eucgr.E02491' => 'egr', 'Eucgr.G02989' => 'egr', 'FAN01G1339' => 'fan', 'FAN02G2010' => 'fan', 'FAN03G2210' => 'fan', 'FAN05G3843' => 'fan', 'FAN06G0325' => 'fan', 'FAN06G3918' => 'fan', 'FAN09G3631' => 'fan', 'FAN09G4363' => 'fan', 'FAN10G4249' => 'fan', 'FAN14G3899' => 'fan', 'FAN14G5558' => 'fan', 'FAN15G3362' => 'fan', 'FAN20G0641' => 'fan', 'FAN20G2169' => 'fan', 'FAN27G2677' => 'fan', 'FvH4_2g40840' => 'fve', 'FvH4_6g13000' => 'fve', 'FvH4_6g28850' => 'fve', 'FvH4_7g23410' => 'fve', 'Glyma.02G251000' => 'gma', 'Glyma.07G025400' => 'gma', 'Glyma.07G137100' => 'gma', 'Glyma.08G217000' => 'gma', 'Glyma.14G065700' => 'gma', 'Glyma.14G111200' => 'gma', 'Glyma.17G216700' => 'gma', 'Glyma.18G187800' => 'gma', 'Gohir.A05G057700' => 'ghi', 'Gohir.A05G058200' => 'ghi', 'Gohir.A05G120200' => 'ghi', 'Gohir.A05G347400' => 'ghi', 'Gohir.A10G223300' => 'ghi', 'Gohir.D04G064900' => 'ghi', 'Gohir.D05G059700' => 'ghi', 'Gohir.D05G060200' => 'ghi', 'Gohir.D05G121200' => 'ghi', 'Gohir.D10G235808' => 'ghi', 'Gorai.009G060800' => 'gra', 'Gorai.009G061300' => 'gra', 'Gorai.009G124700' => 'gra', 'Gorai.011G269600' => 'gra', 'Gorai.012G073000' => 'gra', 'GSVIVG01016468001' => 'vvi', 'GSVIVG01017565001' => 'vvi', 'GSVIVG01035906001' => 'vvi', 'HanXRQChr02g0041741' => 'han', 'HanXRQChr09g0247071' => 'han', 'HanXRQChr12g0379881' => 'han', 'HanXRQChr15g0496451' => 'han', 'Haze_05297' => 'cav', 'Haze_17127' => 'cav', 'Haze_19231' => 'cav', 'Haze_20850' => 'cav', 'Haze_20851' => 'cav', 'Haze_21443' => 'cav', 'Hma1.2p1_0026F.1_g016350' => 'hma', 'Hma1.2p1_2902F.1_g330050' => 'hma', 'HPP92_001610' => 'vpl', 'HPP92_007460' => 'vpl', 'HPP92_015487' => 'vpl', 'HPP92_018518' => 'vpl', 'Hund06528' => 'sun', 'Hund13798' => 'sun', 'Hund16053' => 'sun', 'Hund19599' => 'sun', 'Lalb_Chr01g0012141' => 'lal', 'Lalb_Chr03g0042541' => 'lal', 'Lalb_Chr04g0264701' => 'lal', 'Lalb_Chr17g0346401' => 'lal', 'Lalb_Chr19g0125151' => 'lal', 'Lalb_Chr25g0278981' => 'lal', 'Lj1g0004447' => 'lja', 'Lj2A88T72' => 'lonja', 'Lj3g0004016' => 'lja', 'Lj4C682T4' => 'lonja', 'Lj5A78T82' => 'lonja', 'Lj5g0010916' => 'lja', 'Lj7A730G43' => 'lonja', 'Lj8A78T47' => 'lonja', 'LjContig00141g0011947' => 'lja', 'Lsat_1_v5_gn_1_13880' => 'lsa', 'Lsat_1_v5_gn_5_39880' => 'lsa', 'Lsat_1_v5_gn_9_63501' => 'lsa', 'Manes.03G010800' => 'mes', 'Manes.07G120600' => 'mes', 'Manes.08G086600' => 'mes', 'Manes.09G096100' => 'mes', 'Manes.09G096200' => 'mes', 'Manes.11G064600' => 'mes', 'Mapoly0001s0479' => 'mpo', 'Mapoly0003s0064' => 'mpo', 'MBI01_g22963_MAGBIO' => 'mbi', 'MBI05_g02642_MAGBIO' => 'mbi', 'MCO05G729' => 'mco', 'MD00G1141400' => 'mdo', 'MD00G1150700' => 'mdo', 'MD01G1140100' => 'mdo', 'MD07G1204400' => 'mdo', 'MD09G1224000' => 'mdo', 'MD12G1094400' => 'mdo', 'MD12G1150500' => 'mdo', 'MD15G1037100' => 'mdo', 'MD17G1221200' => 'mdo', 'Medtr1g013120' => 'mtr', 'Medtr4g006560' => 'mtr', 'Medtr5g080870' => 'mtr', 'Medtr5g080880' => 'mtr', 'Medtr7g063520' => 'mtr', 'MELO3C008244.2' => 'cme', 'MELO3C016977.2' => 'cme', 'MELO3C023461.2' => 'cme', 'Migut.A00004' => 'egut', 'Migut.F01285' => 'egut', 'Migut.I00712' => 'egut', 'MSTRG.11173' => 'ama', 'MSTRG.11594' => 'ama', 'MSTRG.263' => 'ama', 'MSTRG.8284' => 'ama', 'Nitab4.5_0000738g0070' => 'nta', 'Nitab4.5_0000779g0060' => 'nta', 'Nitab4.5_0000987g0110' => 'nta', 'Nitab4.5_0001454g0100' => 'nta', 'Nitab4.5_0002503g0060' => 'nta', 'Nitab4.5_0003098g0060' => 'nta', 'Nitab4.5_0003362g0050' => 'nta', 'Nitab4.5_0003811g0040' => 'nta', 'Nitab4.5_0004474g0020' => 'nta', 'Nitab4.5_0006374g0010' => 'nta', 'Nitab4.5_0009423g0010' => 'nta', 'Nitab4.5_0010622g0010' => 'nta', 'Nn2g11241' => 'nnu', 'Nn2g12285' => 'nnu', 'Nn5g30270' => 'nnu', 'Nn6g31598' => 'nnu', 'Nn8g39766' => 'nnu', 'Oeu010366.1' => 'oeu', 'Oeu036640.1' => 'oeu', 'Oeu059081.1' => 'oeu', 'Oeu059732.1' => 'oeu', 'Os01g0143300' => 'osa', 'Os01g0143700' => 'osa', 'Os01g0143800' => 'osa', 'Os02g0453500' => 'osa', 'Os05g0456000' => 'osa', 'Os06g0326500' => 'osa', 'Os08g0439900' => 'osa', 'Os09g0557400' => 'osa', 'Peaxi162Scf00332g00332' => 'pax', 'Peaxi162Scf00430g00310' => 'pax', 'Peaxi162Scf00584g00014' => 'pax', 'Peaxi162Scf00611g00321' => 'pax', 'PGR031G1509' => 'pgr', 'PGR142G2699' => 'pgr', 'PGSC0003DMG400014192' => 'stu', 'PGSC0003DMG400021701' => 'stu', 'PGSC0003DMG400026135' => 'stu', 'PGSC0003DMG402008889' => 'stu', 'Phvul.001G046600' => 'pvu', 'Phvul.008G115200' => 'pvu', 'Phvul.008G230400' => 'pvu', 'Phvul.010G159900' => 'pvu', 'Potri.001G047600' => 'ptr', 'Potri.006G090700' => 'ptr', 'Potri.006G261601' => 'ptr', 'Potri.010G198500' => 'ptr', 'Potri.010G198600' => 'ptr', 'Potri.016G102200' => 'ptr', 'Potri.018G021600' => 'ptr', 'Pp3c12_23320' => 'ppa', 'PRCOL_00003014' => 'pco', 'Prupe.1G391100' => 'ppe', 'Prupe.2G240700' => 'ppe', 'Prupe.3G096300' => 'ppe', 'Prupe.6G262100' => 'ppe', 'Psat2g038720' => 'psa', 'Psat3g135840' => 'psa', 'Psat6g028840' => 'psa', 'Psat7g259840' => 'psa', 'PSO017G0804' => 'pso', 'PSO017G1186' => 'pso', 'PSO017G3868' => 'pso', 'PSO063G2278' => 'pso', 'PSO063G4943' => 'pso', 'PSO063G6291' => 'pso', 'PSO063G6770' => 'pso', 'PSO063G7454' => 'pso', 'PSO104G0124' => 'pso', 'PSO104G0150' => 'pso', 'PSO104G0239' => 'pso', 'PSO104G0275' => 'pso', 'PSO170G0840' => 'pso', 'PSO170G3460' => 'pso', 'PSO170G3526' => 'pso', 'PSO170G6286' => 'pso', 'PSO210G2336' => 'pso', 'PSO210G3930' => 'pso', 'PSO339G0508' => 'pso', 'PSO339G0997' => 'pso', 'PSO339G1047' => 'pso', 'PSO339G1059' => 'pso', 'PSO339G1062' => 'pso', 'PSO339G1455' => 'pso', 'PSO339G2001' => 'pso', 'PSO339G2517' => 'pso', 'PSO339G2987' => 'pso', 'PSO339G3874' => 'pso', 'PSO339G4167' => 'pso', 'PSO339G4232' => 'pso', 'PSO339G4680' => 'pso', 'PSO339G6202' => 'pso', 'PSO339G6405' => 'pso', 'PSO384G2204' => 'pso', 'PSO384G4787' => 'pso', 'PSO407G0106' => 'pso', 'PSO421G0167' => 'pso', 'PSO478G2579' => 'pso', 'PSO513G0024' => 'pso', 'PSO513G0054' => 'pso', 'PSO513G0100' => 'pso', 'PSO541G4537' => 'pso', 'PSO541G5437' => 'pso', 'PSO541G5663' => 'pso', 'PSO601G0021' => 'pso', 'PSO601G0028' => 'pso', 'PSO675G0087' => 'pso', 'PSO675G1427' => 'pso', 'PSO675G1569' => 'pso', 'PSO675G7653' => 'pso', 'PSO675G9016' => 'pso', 'PSO782G4823' => 'pso', 'PSO801G0686' => 'pso', 'PSO832G1535' => 'pso', 'QL02p019823' => 'qlo', 'QL05p035196' => 'qlo', 'QL07p028800' => 'qlo', 'QL08p061631' => 'qlo', 'QL08p061636' => 'qlo', 'QL08p061640' => 'qlo', 'RcHm_v2.0_Chr1g0368531' => 'rch', 'RcHm_v2.0_Chr2g0133381' => 'rch', 'RcHm_v2.0_Chr3g0465131' => 'rch', 'RcHm_v2.0_Chr6g0299721' => 'rch', 'Rhsim02G0207100' => 'rsi', 'Rhsim02G0207300' => 'rsi', 'Rhsim02G0207500' => 'rsi', 'Rhsim03G0136600' => 'rsi', 'Rhsim08G0207700' => 'rsi', 'Rhsim09G0168700' => 'rsi', 'Sabra01G0032900' => 'sbr', 'Sabra06G0068500' => 'sbr', 'Sabra10G0152800' => 'sbr', 'Sabra10G0152900' => 'sbr', 'Sabra18G0024400' => 'sbr', 'SalBow4G1813' => 'sbo', 'SalBow5G5332' => 'sbo', 'SalBow6G2327' => 'sbo', 'SalBow6G5081' => 'sbo', 'SalBow7G3326' => 'sbo', 'SalBow7G3573' => 'sbo', 'Sc06g0007180' => 'sci', 'Sc11g0007650' => 'sci', 'Sc23g0006480' => 'sci', 'Sed0001214' => 'sed', 'Sed0007137' => 'sed', 'Sed0014530' => 'sed', 'Sed0016308' => 'sed', 'Sed0016623' => 'sed', 'Sed0018913' => 'sed', 'Sed0021735' => 'sed', 'Sed0028218' => 'sed', 'SEGI_12546' => 'sgi', 'SEGI_29654' => 'sgi', 'SGA_v2.0_scaffold108G31005' => 'sas', 'SGA_v2.0_scaffold2G00985' => 'sas', 'SGA_v2.0_scaffold5G02758' => 'sas', 'SGA_v2.0_scaffold64G22013' => 'sas', 'SHI03693' => 'shi', 'SHI18484' => 'shi', 'SMO197G0050' => 'smo', 'Solyc03g079930.3' => 'sly', 'Solyc03g117080.4' => 'sly', 'Solyc06g065800.3' => 'sly', 'Solyc09g011250.3' => 'sly', 'Sopen03g027200' => 'spe', 'Sopen03g035990' => 'spe', 'Sopen06g024290' => 'spe', 'Sopen09g006000' => 'spe', 'Sp1g14170' => 'spa', 'Sp4g22070' => 'spa', 'Sp5g06870' => 'spa', 'Sp5g35030' => 'spa', 'Sp6g36890' => 'spa', 'Sp6g40380' => 'spa', 'Sp7g29750' => 'spa', 'TAR381G0448' => 'tar', 'TAR629G0184' => 'tar', 'TAR633G1952' => 'tar', 'TAR633G2187' => 'tar', 'TAR633G2372' => 'tar', 'TAR636G1062' => 'tar', 'TAR636G1456' => 'tar', 'TAR636G2594' => 'tar', 'THA.LOC104803853' => 'tha', 'THA.LOC104810052' => 'tha', 'THA.LOC104810176' => 'tha', 'THA.LOC104812438' => 'tha', 'THA.LOC104816245' => 'tha', 'THA.LOC104816579' => 'tha', 'THA.LOC104823266' => 'tha', 'Thecc.06G039000' => 'tca', 'Thecc.09G018000' => 'tca', 'Thecc.10G034700' => 'tca', 'Thhalv10008623m.g' => 'esa', 'Thhalv10010645m.g' => 'esa', 'Thhalv10014433m.g' => 'esa', 'Thhalv10014436m.g' => 'esa', 'Thhalv10017139m.g' => 'esa', 'Thhalv10019068m.g' => 'esa', 'Thhalv10026055m.g' => 'esa', 'TPR.G25850' => 'tpr', 'TPR.G27325' => 'tpr', 'TPR.G38424' => 'tpr', 'TPR.G38718' => 'tpr', 'TPR.G38839' => 'tpr', 'TWI15G0684' => 'twi', 'TWI18G0406' => 'twi', 'TWI34G0265' => 'twi', 'TWI63G0148' => 'twi', 'TWI74G1509' => 'twi', 'TWI77G0127' => 'twi', 'unitig_0.g1108' => 'ugi', 'unitig_32.g10890' => 'ugi', 'vmacro07037' => 'vma', 'vmacro10213' => 'vma', 'vmacro11230' => 'vma', 'vmacro19043' => 'vma', 'VMungo0331G0712' => 'vmu', 'VMungo0647G0043' => 'vmu', 'VMungo0647G0602' => 'vmu', 'VMungo0647G2163' => 'vmu', 'VMungo1383G3310' => 'vmu', 'Zm00001eb041210' => 'zma', 'Zm00001eb104560' => 'zma', 'Zm00001eb124560' => 'zma', 'Zm00001eb169270' => 'zma', 'Zm00001eb335790' => 'zma', 'Zm00001eb381960' => 'zma' ) $gf_id = 'HOM05D001009' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001009' ) $data_identifier = 'HOM05D001009' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 25, 'aar' => (int) 6, 'aag' => (int) 1, 'ach' => (int) 7, 'amhyb' => (int) 2, 'aly' => (int) 12, 'aox' => (int) 4, 'arhy' => (int) 11, 'ath' => (int) 9, 'atr' => (int) 2, 'acertr' => (int) 9, 'cqu' => (int) 6, 'bca' => (int) 26, 'bol' => (int) 14, 'bra' => (int) 13, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 7, 'cru' => (int) 9, 'car' => (int) 4, 'cbr' => (int) 4, 'ccan' => (int) 3, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 6, 'cpa' => (int) 4, 'cre' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 4, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 4, 'eca' => (int) 2, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 15, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 3, 'han' => (int) 4, 'cav' => (int) 6, 'hma' => (int) 2, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 5, 'lsa' => (int) 3, 'mes' => (int) 6, 'mpo' => (int) 2, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 9, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 12, 'nnu' => (int) 5, 'oeu' => (int) 4, 'osa' => (int) 8, 'pax' => (int) 4, 'pgr' => (int) 2, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 1, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 54, 'qlo' => (int) 6, 'rch' => (int) 4, 'rsi' => (int) 6, 'sbr' => (int) 5, 'sbo' => (int) 6, 'sci' => (int) 3, 'sed' => (int) 8, 'sgi' => (int) 2, 'sas' => (int) 4, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 7, 'tar' => (int) 8, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 7, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 2, 'vma' => (int) 4, 'vmu' => (int) 5, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb381960' $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